Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 64 of 75
Found at i:20512168 original size:9 final size:9
Alignment explanation
Indices: 20512144--20512180 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20512134 TGAGTTTTCG
*
20512144 AATTCAAAT
1 AATTCGAAT
*
20512153 AACTCGAAT
1 AATTCGAAT
20512162 AATTCGAAT
1 AATTCGAAT
20512171 AATTCGAAT
1 AATTCGAAT
20512180 A
1 A
20512181 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:20513622 original size:17 final size:17
Alignment explanation
Indices: 20513602--20513639 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20513592 TATTTAATAT
20513602 TTTTAATCATTTTTTT-A
1 TTTTAA-CATTTTTTTAA
*
20513619 TTTTAAGATTTTTTTAA
1 TTTTAACATTTTTTTAA
20513636 TTTT
1 TTTT
20513640 TTAGAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAACATTTTTTTAA
Found at i:20513622 original size:18 final size:17
Alignment explanation
Indices: 20513599--20513640 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
20513589 TTCTATTTAA
20513599 TATTTTTAATCATTTTTT
1 TATTTTTAA-CATTTTTT
*
20513617 TA-TTTTAAGATTTTTT
1 TATTTTTAACATTTTTT
20513633 TAATTTTT
1 T-ATTTTT
20513641 TAGAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 7 0.33
18 6 0.29
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TATTTTTAACATTTTTT
Found at i:20514094 original size:23 final size:22
Alignment explanation
Indices: 20514062--20514107 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
20514052 ATTTTTTATT
20514062 TAAAATTAAT-TATAAAAATATA
1 TAAAATTAATGT-TAAAAATATA
*
20514084 TAAACATTAATGTTAAAATTATA
1 TAAA-ATTAATGTTAAAAATATA
20514107 T
1 T
20514108 GTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 16 0.76
24 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAATTAATGTTAAAAATATA
Found at i:20514995 original size:18 final size:16
Alignment explanation
Indices: 20514963--20514997 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
20514953 CAAGAGAGGG
20514963 AGAAAAGAAGAAAGAA
1 AGAAAAGAAGAAAGAA
20514979 AGAAAAGAGACGAAAGAA
1 AGAAAAGA-A-GAAAGAA
20514997 A
1 A
20514998 ATGTATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAGAAAGAA
Found at i:20518225 original size:62 final size:62
Alignment explanation
Indices: 20518149--20518565 Score: 579
Period size: 62 Copynumber: 6.7 Consensus size: 62
20518139 CAATGTACCT
*
20518149 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAGCAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
20518211 AATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTGTGATGTATTTAATTTATATAAAAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* *
20518273 AAATTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAGCAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
20518335 AATTTATATTACAAAGTTTGTTCTAATTTTTAATGTTGTGATGTATTTAATTTATATAAAAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* *
20518397 AAATTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * * * *
20518459 AATTTATATTATAAAGTTTGTTCCAAGTTTTAGTGTTTTAATGT-TGTAATGTTGCA-ATTAATC
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAAT-TT--ATA-TAA-C
*
20518522 -T
61 AA
** *
20518523 AATTTATGACCACAAAGTTTGTTCCAAGTTTTAATGTTGTAAT
1 AATTTAT-ATTACAAAGTTTGTTCCAATTTTTAATGTTGTAAT
20518566 TAATCTAATT
Statistics
Matches: 317, Mismatches: 32, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
61 5 0.02
62 270 0.85
63 1 0.00
64 10 0.03
65 31 0.10
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:20519744 original size:14 final size:14
Alignment explanation
Indices: 20519725--20519752 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20519715 TAAATTACAT
20519725 GTTAGAATAGTATC
1 GTTAGAATAGTATC
20519739 GTTAGAATAGTATC
1 GTTAGAATAGTATC
20519753 ATTACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:20530936 original size:16 final size:16
Alignment explanation
Indices: 20530915--20530970 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
20530905 TGAATTACTT
20530915 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
20530931 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
20530947 ATTACATCTCTATTCC
1 ATTACAGCTCTATTCC
20530963 ATTACAGC
1 ATTACAGC
20530971 GAACCAAACG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:20531579 original size:20 final size:20
Alignment explanation
Indices: 20531554--20531630 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
20531544 GATGCATAAC
20531554 AGAGGCACCAAAGTGCAGAT
1 AGAGGCACCAAAGTGCAGAT
* *
20531574 AGAGGCACTAATGTGC-GAT
1 AGAGGCACCAAAGTGCAGAT
** * * *
20531593 CAGAGGCACTGAAGTACAAAC
1 -AGAGGCACCAAAGTGCAGAT
*
20531614 AAAGGCACCAAAGTGCA
1 AGAGGCACCAAAGTGCA
20531631 ACTCCCGAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.91
21 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAGAT
Found at i:20534165 original size:19 final size:19
Alignment explanation
Indices: 20534141--20534179 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20534131 AAATTTGGGT
20534141 CATAGCTCAGCCCGTGTGA
1 CATAGCTCAGCCCGTGTGA
20534160 CATAGCTCAGCCCGTGTGA
1 CATAGCTCAGCCCGTGTGA
20534179 C
1 C
20534180 TCAAGAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (19 bp):
CATAGCTCAGCCCGTGTGA
Found at i:20536221 original size:24 final size:24
Alignment explanation
Indices: 20536185--20536343 Score: 118
Period size: 24 Copynumber: 7.0 Consensus size: 24
20536175 CAAGCTGTAT
20536185 CGTTGTGGTCAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
*
20536209 CGTTGTGGCCAAGCCACTCAAT-A
1 CGTTGTGGTCAAGCCACTCAATAA
* ** *
20536232 --TCGCAGTCAAG---CT--ATAT
1 CGTTGTGGTCAAGCCACTCAATAA
20536249 CGTTGTGGTCAAGCCACTCAATAA
1 CGTTGTGGTCAAGCCACTCAATAA
* * *
20536273 TGTTGTGGACAAGCCACTCAATAG
1 CGTTGTGGTCAAGCCACTCAATAA
* * * * * *
20536297 TGCTATGGCCAAACCACTCAGTAA
1 CGTTGTGGTCAAGCCACTCAATAA
* *
20536321 CATTATGGTCAAGCCACTCAATA
1 CGTTGTGGTCAAGCCACTCAATA
20536344 TTGCAATAGA
Statistics
Matches: 102, Mismatches: 25, Indels: 16
0.71 0.17 0.11
Matches are distributed among these distances:
16 2 0.02
18 2 0.02
19 8 0.08
21 7 0.07
22 2 0.02
23 1 0.01
24 80 0.78
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (24 bp):
CGTTGTGGTCAAGCCACTCAATAA
Found at i:20536259 original size:64 final size:64
Alignment explanation
Indices: 20536158--20536295 Score: 240
Period size: 64 Copynumber: 2.2 Consensus size: 64
20536148 TCTGGCTAAA
* *
20536158 CCACTCAATATCACAGTCAAGCTGTATCGTTGTGGTCAAGCCACTCAATAACGTTGTGGCCAAG
1 CCACTCAATATCACAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATAACGTTGTGGACAAG
* *
20536222 CCACTCAATATCGCAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATAATGTTGTGGACAAG
1 CCACTCAATATCACAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATAACGTTGTGGACAAG
20536286 CCACTCAATA
1 CCACTCAATA
20536296 GTGCTATGGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (64 bp):
CCACTCAATATCACAGTCAAGCTATATCGTTGTGGTCAAGCCACTCAATAACGTTGTGGACAAG
Found at i:20546012 original size:7 final size:7
Alignment explanation
Indices: 20546000--20546024 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20545990 TGATGTGTGT
20546000 AATTGAA
1 AATTGAA
20546007 AATTGAA
1 AATTGAA
20546014 AATTGAA
1 AATTGAA
20546021 AATT
1 AATT
20546025 ATGAATTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
AATTGAA
Found at i:20546176 original size:19 final size:19
Alignment explanation
Indices: 20546132--20546177 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
20546122 GAAATGTTTG
20546132 ATGATATAATGTGATATAAT
1 ATGATAT-ATGTGATATAAT
*
20546152 AT-ATATATTTGATTATAA-
1 ATGATATATGTGA-TATAAT
20546170 ATGATATA
1 ATGATATA
20546178 AAGTTATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (19 bp):
ATGATATATGTGATATAAT
Found at i:20546273 original size:36 final size:36
Alignment explanation
Indices: 20546233--20546302 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
20546223 TGAACGCGGA
20546233 ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTCGG
1 ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTCGG
*
20546269 ATGGATTAGCTCTTTTGAGCATCTGGTGTGTTTC
1 ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTC
20546303 AATTGGAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.14, C:0.16, G:0.29, T:0.41
Consensus pattern (36 bp):
ATGGATTAGCTCTTTTGAGCATCCGGTGTGTTTCGG
Found at i:20548108 original size:17 final size:17
Alignment explanation
Indices: 20548078--20548111 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20548068 ATTACAAAAT
**
20548078 CAAATCTTTTAAGATTA
1 CAAATCTTAGAAGATTA
20548095 CAAATCTTAGAAGATTA
1 CAAATCTTAGAAGATTA
20548112 GTTTCCCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (17 bp):
CAAATCTTAGAAGATTA
Found at i:20556331 original size:3 final size:3
Alignment explanation
Indices: 20556325--20556381 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
20556315 TCATGGTTGT
* * * *
20556325 TGG TGG TGG TGG TGG AGG TGG AGG TGG TGG TGG TGG T-G TCG TGG TTG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
20556372 TGG TGG TGG T
1 TGG TGG TGG T
20556382 TGAGGTTGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.04, C:0.02, G:0.61, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:20564390 original size:93 final size:93
Alignment explanation
Indices: 20564219--20564390 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
20564209 TTGCTGTTTC
* **
20564219 CGTTGGTGTTAGGGACAACTGTTGCGATGACATCAGTGTTGTTCACAGCAGCCCTATCCACGTTG
1 CGTTGGTGTTAGGGACAACTGTTACGATGACATCAGTGTCATTCACAGCAGCCCTATCCACGTTG
* **
20564284 TTGTCATTTTTGTTGTTGTTGTGGTGGT
66 TTCTCATGGTTGTTGTTGTTGTGGTGGT
* * * * *
20564312 CGTTGGTGTTAGGGACAGCTGTTATGGTGACATCAGTGTCATTCTCAGCATCCCTATCCACGTTG
1 CGTTGGTGTTAGGGACAACTGTTACGATGACATCAGTGTCATTCACAGCAGCCCTATCCACGTTG
**
20564377 TTCTTGTGGTTGTT
66 TTCTCATGGTTGTT
20564391 ACTGGTGTTG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 66 1.00
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (93 bp):
CGTTGGTGTTAGGGACAACTGTTACGATGACATCAGTGTCATTCACAGCAGCCCTATCCACGTTG
TTCTCATGGTTGTTGTTGTTGTGGTGGT
Found at i:20564404 original size:3 final size:3
Alignment explanation
Indices: 20564373--20564424 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
20564363 CCCTATCCAC
* * ** * *
20564373 GTT GTT CTT GTG GTT GTT ACT GGT GTT GTT GTT GTT GTT GTT GTT GTG
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
20564421 GTT G
1 GTT G
20564425 GGGTTGGGGT
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.02, C:0.04, G:0.37, T:0.58
Consensus pattern (3 bp):
GTT
Found at i:20565165 original size:25 final size:26
Alignment explanation
Indices: 20565137--20565192 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
20565127 AAGAAGAATT
20565137 GAGGAAGAGAAAGAATCAGAG-AAA-A
1 GAGGAAGAGAAAGAA-CAGAGTAAAGA
* *
20565162 GAGG-AGAGGAAGAAGAGAGTAAAGA
1 GAGGAAGAGAAAGAACAGAGTAAAGA
20565187 GAGGAA
1 GAGGAA
20565193 TCAGAGAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 12 0.46
25 9 0.35
26 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.39, T:0.04
Consensus pattern (26 bp):
GAGGAAGAGAAAGAACAGAGTAAAGA
Found at i:20566152 original size:22 final size:23
Alignment explanation
Indices: 20566118--20566166 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
20566108 ATAATAAAAT
20566118 TAAATTGATTATAAATATTAGAA
1 TAAATTGATTATAAATATTAGAA
20566141 TAAATT-ATTATAAATATTAGAA
1 TAAATTGATTATAAATATTAGAA
20566163 TAAA
1 TAAA
20566167 ACTTTGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (23 bp):
TAAATTGATTATAAATATTAGAA
Found at i:20578428 original size:24 final size:24
Alignment explanation
Indices: 20578397--20578465 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
20578387 TATTAACATC
20578397 GTTCGTGAACATGTTCAATTATAT
1 GTTCGTGAACATGTTCAATTATAT
* *
20578421 GTTTGTGAACATGTTCACTTATAT
1 GTTCGTGAACATGTTCAATTATAT
* *
20578445 GTTCGTAAACATGTTCGATTA
1 GTTCGTGAACATGTTCAATTA
20578466 AGTTAAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (24 bp):
GTTCGTGAACATGTTCAATTATAT
Found at i:20580783 original size:3 final size:3
Alignment explanation
Indices: 20580775--20580821 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
20580765 AGCGACCCCA
*
20580775 ACC ACC ACC ACC ACC ACC ACC ACC ACG A-C ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
20580822 TCCGACAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.34, C:0.64, G:0.02, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:20590609 original size:20 final size:22
Alignment explanation
Indices: 20590574--20590613 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
20590564 CTTTTTTTAC
20590574 ATAATATAATATAATATATTTT
1 ATAATATAATATAATATATTTT
20590596 ATAAT-TAA-ATAATATATT
1 ATAATATAATATAATATATT
20590614 AATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATAATATAATATATTTT
Found at i:20596505 original size:50 final size:50
Alignment explanation
Indices: 20596427--20596668 Score: 313
Period size: 50 Copynumber: 4.8 Consensus size: 50
20596417 ATTTGGGTAA
* *
20596427 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
20596477 AGAGGTCCCATGTGAGACCATGTTTGGGACATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** *
20596527 AGAGGTCCCATGTAAGACCGTGTCTGGGACATGGTGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** * *
20596577 AGAGGTCCCCCATAAGACCATGTCTAGGACATGGCATTGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
20596627 AGAACTCCCATGTAAGACTATATCTGAGACATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
20596669 TTACAAGAAA
Statistics
Matches: 162, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 162 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:20596707 original size:49 final size:48
Alignment explanation
Indices: 20596432--20596719 Score: 145
Period size: 50 Copynumber: 5.8 Consensus size: 48
20596422 GGTAAAGAGG
* * * * **
20596432 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATA-AGAGG
1 TCCCATGTAAGA-CATGTCTAGGACATGGCATTGGCA-TGACA-AGAGAAC
* * * * *
20596482 TCCCATGTGAGACCATGTTTGGGACATGGCATTGGCA--CCAAGATGAGAGG
1 TCCCATGTAAGA-CATGTCTAGGACATGGCATTGGCATGACAAGA-GA-A-C
* * ** * * **
20596532 TCCCATGTAAGACCGTGTCTGGGACATGGTGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGA-CATGTCTAGGACATGGCATTGGCAT-GACAAGAGAAC
*** * * *
20596582 TCCCCCATAAGACCATGTCTAGGACATGGCATTGGCACCGATATGAGAAC
1 TCCCATGTAAGA-CATGTCTAGGACATGGCATTGGCA-TGACAAGAGAAC
* *
20596632 TCCCATGTAAGACTATATCT-GAGACATGGCATTGGCATTACAAGA-AAC
1 TCCCATGTAAGAC-ATGTCTAG-GACATGGCATTGGCATGACAAGAGAAC
* *
20596680 ATCCCATGTAAGATCATGTCTAGGACATGACTTTGGCATG
1 -TCCCATGTAAGA-CATGTCTAGGACATGGCATTGGCATG
20596720 TTATTATCAG
Statistics
Matches: 187, Mismatches: 38, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 5 0.03
49 37 0.20
50 137 0.73
52 2 0.01
53 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (48 bp):
TCCCATGTAAGACATGTCTAGGACATGGCATTGGCATGACAAGAGAAC
Found at i:20609090 original size:22 final size:22
Alignment explanation
Indices: 20609062--20609108 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
20609052 CCGCAATGTT
20609062 AGGGCTCGGACTCAGCATTCGG
1 AGGGCTCGGACTCAGCATTCGG
20609084 AGGGCTCGGACTCAGCATTCGG
1 AGGGCTCGGACTCAGCATTCGG
20609106 AGG
1 AGG
20609109 TCTCATATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.38, T:0.17
Consensus pattern (22 bp):
AGGGCTCGGACTCAGCATTCGG
Found at i:20612760 original size:16 final size:16
Alignment explanation
Indices: 20612741--20612802 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 16
20612731 CTATTACGTC
20612741 TCTATTCCATTACACA
1 TCTATTCCATTACACA
* *
20612757 TCTATTCTATTACACC
1 TCTATTCCATTACACA
* **
20612773 TCTATTTCATTACGTA
1 TCTATTCCATTACACA
*
20612789 TCTATTCCAATACA
1 TCTATTCCATTACA
20612803 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:20612767 original size:32 final size:32
Alignment explanation
Indices: 20612731--20612795 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
20612721 AATTGATTTG
**
20612731 CTATTACGTCTCTATTCCATTACACATCTATT
1 CTATTACACCTCTATTCCATTACACATCTATT
* **
20612763 CTATTACACCTCTATTTCATTACGTATCTATT
1 CTATTACACCTCTATTCCATTACACATCTATT
20612795 C
1 C
20612796 CAATACAGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.45
Consensus pattern (32 bp):
CTATTACACCTCTATTCCATTACACATCTATT
Found at i:20620073 original size:22 final size:21
Alignment explanation
Indices: 20620048--20620112 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 21
20620038 TACAAATTAA
*
20620048 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-ATATCAT
*
20620070 ATCTTCTAAGATTGCATATCAT
1 ATC-TCTAAGATTACATATCAT
20620092 A--TCTAAGATTACATATCAT
1 ATCTCTAAGATTACATATCAT
20620111 AT
1 AT
20620113 ATAAGATTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
19 18 0.47
22 10 0.26
23 10 0.26
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (21 bp):
ATCTCTAAGATTACATATCAT
Found at i:20620081 original size:23 final size:22
Alignment explanation
Indices: 20620038--20620112 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 22
20620028 AAAAGGTATC
* *
20620038 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
20620059 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
20620082 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
20620101 TACATATCATAT
1 TACAAATCATAT
20620113 ATAAGATTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 18 0.39
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:20620098 original size:19 final size:19
Alignment explanation
Indices: 20620074--20620127 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
20620064 AATCATATCT
20620074 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
20620093 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
20620112 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
20620128 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20622751 original size:27 final size:27
Alignment explanation
Indices: 20622693--20622756 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
20622683 TTAGAATACG
* **
20622693 CCACAAAGGCGATCCATAAAGAGTATG
1 CCACAAAGGCGATACATAAAGAGTACA
* * *
20622720 TCACAAAGGCGATACATTAATAGTACA
1 CCACAAAGGCGATACATAAAGAGTACA
20622747 CCACAAAGGC
1 CCACAAAGGC
20622757 TGACAAGATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (27 bp):
CCACAAAGGCGATACATAAAGAGTACA
Found at i:20624572 original size:73 final size:74
Alignment explanation
Indices: 20624369--20624582 Score: 263
Period size: 74 Copynumber: 2.9 Consensus size: 74
20624359 AAAAAAAAAG
* * * * * *
20624369 AATTTATTCATTTTTTGATAAAATATAAATAAGTATATTGTTCATGTAAAAATACAATACAGTAC
1 AATTTATTCACTTTTTGATAAATTATAAATAAGTAAATTATTAATGTAAAAATACAATACAATAC
20624434 AATACAAAC
66 AATACAAAC
* * *
20624443 AATTTATTCACTTTTTTATAAATTGTAAATAAGTAAATTATTAATGTAAAAATACAATAAAATAC
1 AATTTATTCACTTTTTGATAAATTATAAATAAGTAAATTATTAATGTAAAAATACAATACAATAC
*
20624508 AATA-ACTAC
66 AATACA-AAC
* * * *
20624517 AATTTATTCA-TTTTTGGTAAATTATAAATAAGCT-GATTATTAATGTCAAATTACAATACAATA
1 AATTTATTCACTTTTTGATAAATTATAAATAAG-TAAATTATTAATGTAAAAATACAATACAATA
20624580 CAA
65 CAA
20624583 ATAATTTTTT
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
73 48 0.40
74 73 0.60
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (74 bp):
AATTTATTCACTTTTTGATAAATTATAAATAAGTAAATTATTAATGTAAAAATACAATACAATAC
AATACAAAC
Found at i:20630457 original size:42 final size:41
Alignment explanation
Indices: 20630397--20630475 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 41
20630387 CATGTTATCA
20630397 CATATCGATGCCACTGTCCCAGACAAGGTCTTACACGAAAT
1 CATATCGATGCCACTGTCCCAGACAAGGTCTTACACGAAAT
*
20630438 CATATACGATGCCGA-TGTCCCAGACATGGTCTTACACG
1 CATAT-CGATGCC-ACTGTCCCAGACAAGGTCTTACACG
20630476 TACATCACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 5 0.14
42 29 0.83
43 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
CATATCGATGCCACTGTCCCAGACAAGGTCTTACACGAAAT
Found at i:20634738 original size:16 final size:17
Alignment explanation
Indices: 20634711--20634745 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
20634701 TAGCATCGGG
*
20634711 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
20634728 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
20634744 TT
1 TT
20634746 AATTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:20641745 original size:60 final size:60
Alignment explanation
Indices: 20641622--20641745 Score: 151
Period size: 60 Copynumber: 2.0 Consensus size: 60
20641612 CAAAAAAGTT
** * *
20641622 AAGTTTAGGCACCTAATTGGACAAAAAAAAAAAGATTAGGTACCAAATTGAACATCGAGGCC
1 AAGTTTAGAAACCTAATTGGAC--AAAAAAAAAGATTAGATACCAAATTGAACATCGAAGCC
* * *
20641684 AAGTTTAGAAACCTAATTGGAC-AAAAAAAAGCTTTAGATACCAATTTGAACCTCGAAGCC
1 AAGTTTAGAAACCTAATTGGACAAAAAAAAAG-ATTAGATACCAAATTGAACATCGAAGCC
20641744 AA
1 AA
20641746 ATTCAAGTAC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 9 0.17
60 25 0.46
62 20 0.37
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (60 bp):
AAGTTTAGAAACCTAATTGGACAAAAAAAAAGATTAGATACCAAATTGAACATCGAAGCC
Found at i:20644322 original size:11 final size:11
Alignment explanation
Indices: 20644268--20644325 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
20644258 CCTACTATGG
20644268 TTTTGTTGTT-
1 TTTTGTTGTTA
* *
20644278 GTTTGTTGCTA
1 TTTTGTTGTTA
*
20644289 TTTTGTTATTA
1 TTTTGTTGTTA
* * *
20644300 TATTGCTATTA
1 TTTTGTTGTTA
20644311 TTTTGTTGTTA
1 TTTTGTTGTTA
20644322 TTTT
1 TTTT
20644326 TTAGATATTG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
10 8 0.22
11 29 0.78
ACGTcount: A:0.12, C:0.03, G:0.16, T:0.69
Consensus pattern (11 bp):
TTTTGTTGTTA
Found at i:20648302 original size:22 final size:21
Alignment explanation
Indices: 20648276--20648337 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
20648266 GATAAATAAT
*
20648276 TTGTAATGTTTTGTGTAATTCG
1 TTGTAATATTTTGTGTAATT-G
* *
20648298 TTGTAATAATCTGTGTAATTG
1 TTGTAATATTTTGTGTAATTG
20648319 --GATAATATTTTGTGTAATT
1 TTG-TAATATTTTGTGTAATT
20648338 ACACACAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.03
20 15 0.44
21 1 0.03
22 17 0.50
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (21 bp):
TTGTAATATTTTGTGTAATTG
Found at i:20655635 original size:38 final size:38
Alignment explanation
Indices: 20655584--20656033 Score: 900
Period size: 38 Copynumber: 11.8 Consensus size: 38
20655574 AGGGGGAGTG
20655584 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655622 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655660 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655698 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655736 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655774 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655812 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655850 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655888 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655926 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20655964 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
1 TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
20656002 TTGGAATCCCTATAATTAAGGATAGAAATCTG
1 TTGGAATCCCTATAATTAAGGATAGAAATCTG
20656034 TTGTGATCTC
Statistics
Matches: 412, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 412 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (38 bp):
TTGGAATCCCTATAATTAAGGATAGAAATCTGATGGTA
Found at i:20658573 original size:24 final size:24
Alignment explanation
Indices: 20658523--20658573 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
20658513 TAATATAAAT
20658523 TATTTGTAAAATTAATGATACAAGA
1 TATTTGTAAAATTAA-GATACAAGA
20658548 TATTT-TAAAATTTAA-ATACAATGA
1 TATTTGTAAAA-TTAAGATACAA-GA
20658572 TA
1 TA
20658574 AATGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
TATTTGTAAAATTAAGATACAAGA
Found at i:20658581 original size:31 final size:31
Alignment explanation
Indices: 20658536--20658604 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
20658526 TTGTAAAATT
*
20658536 AATGATACAAGATATTTTAA-AATTTAAATAC
1 AATGATACAAGATATTTAAATAATTTAAA-AC
*
20658567 AATGATA-AATGATATTTAAATAATTTAAAAT
1 AATGATACAA-GATATTTAAATAATTTAAAAC
20658598 AATGATA
1 AATGATA
20658605 TTTGTGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 2 0.06
31 24 0.71
32 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (31 bp):
AATGATACAAGATATTTAAATAATTTAAAAC
Found at i:20661432 original size:29 final size:29
Alignment explanation
Indices: 20661388--20661465 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
20661378 GACCTGTAAG
* *
20661388 GGGGGGGGGGGGGAAGGGAGAAAGCAACA
1 GGGGGGGGGGGTGAAGCGAGAAAGCAACA
20661417 GGGGGGGGGGGTGAAGCGAGAAAGCAACA
1 GGGGGGGGGGGTGAAGCGAGAAAGCAACA
20661446 GGAGGAGGGGAGGGATGAAG
1 GG-GG-GGGG-GGG-TGAAG
20661466 AGAAGTAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 29 0.67
30 2 0.05
31 4 0.09
32 3 0.07
33 5 0.12
ACGTcount: A:0.31, C:0.06, G:0.60, T:0.03
Consensus pattern (29 bp):
GGGGGGGGGGGTGAAGCGAGAAAGCAACA
Found at i:20672056 original size:20 final size:20
Alignment explanation
Indices: 20672031--20672125 Score: 113
Period size: 20 Copynumber: 4.8 Consensus size: 20
20672021 GCTTTTACCA
20672031 AAATATTTTGGTAAATCCTT
1 AAATATTTTGGTAAATCCTT
20672051 AAATATTTTGGTAAAGT-CTT
1 AAATATTTTGGTAAA-TCCTT
* *
20672071 AAAAATTTTGGTGAATCCTT
1 AAATATTTTGGTAAATCCTT
*
20672091 AGAA-ATATTGGTAAATCCTT
1 A-AATATTTTGGTAAATCCTT
**
20672111 GGATATTTTGGTAAA
1 AAATATTTTGGTAAA
20672126 AGCTTTTCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
19 2 0.03
20 59 0.92
21 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (20 bp):
AAATATTTTGGTAAATCCTT
Found at i:20673802 original size:13 final size:13
Alignment explanation
Indices: 20673786--20673838 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
20673776 TTTAAACCAA
20673786 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
20673799 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
20673812 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
20673825 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
20673838 A
1 A
20673839 ATGAAGAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:20681519 original size:21 final size:21
Alignment explanation
Indices: 20681494--20681545 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
20681484 AAACTCCTTA
*
20681494 TAAAAATTT-AATTTAATTCTT
1 TAAAAATTTAAATAT-ATTCTT
*
20681515 TAAAAATTATAAATATATTGTT
1 TAAAAATT-TAAATATATTCTT
20681537 TAAAAATTT
1 TAAAAATTT
20681546 TGATACTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 14 0.52
23 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAAAATTTAAATATATTCTT
Found at i:20683449 original size:19 final size:19
Alignment explanation
Indices: 20683425--20683511 Score: 83
Period size: 20 Copynumber: 4.6 Consensus size: 19
20683415 AAAAAATAGA
20683425 AATTATAAAAAATATTAAT
1 AATTATAAAAAATATTAAT
* * *
20683444 AATTATTTAAAAATTTTAAA
1 AATTA-TAAAAAATATTAAT
20683464 AATTATAAAATTAA-ATTAA-
1 AATTATAAAA--AATATTAAT
20683483 AA-TAT-AAAAATATTAAT
1 AATTATAAAAAATATTAAT
20683500 AATTCATAAAAA
1 AATT-ATAAAAA
20683512 TTATAAAATN
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
15 2 0.04
16 5 0.09
17 5 0.09
18 4 0.07
19 13 0.24
20 24 0.44
21 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTATAAAAAATATTAAT
Found at i:20683519 original size:9 final size:9
Alignment explanation
Indices: 20683412--20683519 Score: 64
Period size: 9 Copynumber: 11.8 Consensus size: 9
20683402 AATTCGAGAC
20683412 TATAAAAA-
1 TATAAAAAT
*
20683420 -ATAGAAAT
1 TATAAAAAT
*
20683428 TATAAAAAA
1 TATAAAAAT
*
20683437 TATTAATAAT
1 TA-TAAAAAT
20683447 TATTTAAAAAT
1 TA--TAAAAAT
*
20683458 TTTAAAAAT
1 TATAAAAAT
20683467 TAT-AAAAT
1 TATAAAAAT
*
20683475 TA-AATTAAAA
1 TATAA--AAAT
20683485 TATAAAAA-
1 TATAAAAAT
*
20683493 TATTAATAAT
1 TA-TAAAAAT
20683503 TCATAAAAAT
1 T-ATAAAAAT
20683513 TATAAAA
1 TATAAAA
20683520 TNNNNNNNNN
Statistics
Matches: 78, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
7 6 0.08
8 10 0.13
9 31 0.40
10 20 0.26
11 11 0.14
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:20683680 original size:19 final size:19
Alignment explanation
Indices: 20683634--20683687 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
20683624 TTTTTTAAGA
* * *
20683634 TTTTTTTAAAATTATTAAT
1 TTTTTTTTATATTTTTAAT
* *
20683653 ATTTATTTATATTTTTAAT
1 TTTTTTTTATATTTTTAAT
20683672 TTTTTTTTATAGTTTT
1 TTTTTTTTATA-TTTT
20683688 GAACTCATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTTTTATATTTTTAAT
Found at i:20685364 original size:134 final size:132
Alignment explanation
Indices: 20685101--20685366 Score: 352
Period size: 134 Copynumber: 2.0 Consensus size: 132
20685091 AACCCGATTG
* *
20685101 CACTTATATAGAGGCAAGTTCTCATCATCATTTCTCAAACTTCACATTTTTTTTTATTTCATATC
1 CACTTATATAGAGACAAGTTCTCAGCATCATTTCTCAAACTTCACATTTTTTTTTATTTCATATC
* * * * * *
20685166 CATTTTACCGTATATGTTCAAGAATTATTTGTATCTCTCTCAAGAATACCGTTTTAAAAATTCAA
66 CATTTTACCATATATATTCAAGAATTATGTATACCTCTCTCAAAAATACCGTTTTAAAAATTCAA
20685231 AC
131 AC
* *
20685233 CACTTATATATAGACAAGTTCTCGGCATCATTTCTCAAACTTCACATTTTTTTATTTATTTCATA
1 CACTTATATAGAGACAAGTTCTCAGCATCATTTCTCAAACTTCACA-TTTTTT-TTTATTTCATA
** * * * * * *
20685298 TCTGTTTTACTATCTATATTCAGGATTTATGTATACCTCTCTCAAAAATATCGTTTTAAAAGTTC
64 TCCATTTTACCATATATATTCAAGAATTATGTATACCTCTCTCAAAAATACCGTTTTAAAAATTC
20685363 AAAC
129 AAAC
20685367 TCATATTTAC
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
132 42 0.37
133 6 0.05
134 66 0.58
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (132 bp):
CACTTATATAGAGACAAGTTCTCAGCATCATTTCTCAAACTTCACATTTTTTTTTATTTCATATC
CATTTTACCATATATATTCAAGAATTATGTATACCTCTCTCAAAAATACCGTTTTAAAAATTCAA
AC
Found at i:20687617 original size:14 final size:14
Alignment explanation
Indices: 20687598--20687628 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
20687588 AGGTCATTTA
20687598 GCCCAACCAAACTG
1 GCCCAACCAAACTG
20687612 GCCCAACCAAACTG
1 GCCCAACCAAACTG
20687626 GCC
1 GCC
20687629 TGGTGATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.45, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:20695499 original size:60 final size:60
Alignment explanation
Indices: 20695432--20695577 Score: 179
Period size: 60 Copynumber: 2.4 Consensus size: 60
20695422 ACACTTTAAT
**
20695432 CTGTCCTGTTCTGAAAATACGTA-TTTCAGCGTTGCCTTGTTCTGAATATGCACTTTC-GTG
1 CTGTCCTGTTCTGAAAATACACACTTTCA-CGTTGCCTTGTTCTGAATATGCAC-TTCAGTG
* * * * *
20695492 TTGTCCTGTTCTAAAAATACACACTTTGATGTTGTCTTGTTCTGAATATGCACTTCAGTG
1 CTGTCCTGTTCTGAAAATACACACTTTCACGTTGCCTTGTTCTGAATATGCACTTCAGTG
* *
20695552 CTGTCTTGTTATGAAAATACACACTT
1 CTGTCCTGTTCTGAAAATACACACTT
20695578 CGGTGTTGTC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 3 0.04
60 66 0.90
61 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (60 bp):
CTGTCCTGTTCTGAAAATACACACTTTCACGTTGCCTTGTTCTGAATATGCACTTCAGTG
Found at i:20695501 original size:29 final size:29
Alignment explanation
Indices: 20695469--20695546 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
20695459 AGCGTTGCCT
20695469 TGTTCTGAATATGCACTTTCG-TGTTGTCC
1 TGTTCTGAATATGCACTTT-GATGTTGTCC
* ** *
20695498 TGTTCTAAAAATACACACTTTGATGTTGTCT
1 TGTTCT--GAATATGCACTTTGATGTTGTCC
20695529 TGTTCTGAATATGCACTT
1 TGTTCTGAATATGCACTT
20695547 CAGTGCTGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
29 15 0.38
30 1 0.03
31 23 0.59
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.44
Consensus pattern (29 bp):
TGTTCTGAATATGCACTTTGATGTTGTCC
Found at i:20695556 original size:29 final size:28
Alignment explanation
Indices: 20695462--20695566 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 28
20695452 GTATTTCAGC
*
20695462 GTTGCCTTGTTCTGAATATGCACTTTCGT
1 GTTGTCTTGTTCTGAATATGCAC-TTCGT
* * ** *
20695491 GTTGTCCTGTTCTAAAAATACACACTTTGAT
1 GTTGTCTTGTTCT--GAATATGCACTTCG-T
20695522 GTTGTCTTGTTCTGAATATGCACTTCAGT
1 GTTGTCTTGTTCTGAATATGCACTTC-GT
* *
20695551 GCTGTCTTGTTATGAA
1 GTTGTCTTGTTCTGAA
20695567 AATACACACT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
29 35 0.59
30 4 0.07
31 20 0.34
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.43
Consensus pattern (28 bp):
GTTGTCTTGTTCTGAATATGCACTTCGT
Found at i:20695715 original size:31 final size:31
Alignment explanation
Indices: 20695593--20695717 Score: 119
Period size: 31 Copynumber: 4.1 Consensus size: 31
20695583 TTGTCCTACG
* * **
20695593 CATTTCGGTGTTGTCTTGTTTTGAAAATATG
1 CATTTCGGTGTTGTCCTGTTCTGAAAATACA
*
20695624 CATTTCGGTATTGTCCTGTTCTGAAAATACA
1 CATTTCGGTGTTGTCCTGTTCTGAAAATACA
* ** **
20695655 CCACTTCAATGTTGT-CT-TTCTCTAAATACA
1 -CATTTCGGTGTTGTCCTGTTCTGAAAATACA
* *
20695685 CATTTCGGTGTTTTCCTATTCTGAAAATACA
1 CATTTCGGTGTTGTCCTGTTCTGAAAATACA
20695716 CA
1 CA
20695718 CTTGGCAAAG
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
29 10 0.14
30 13 0.18
31 41 0.55
32 10 0.14
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (31 bp):
CATTTCGGTGTTGTCCTGTTCTGAAAATACA
Found at i:20705959 original size:3 final size:3
Alignment explanation
Indices: 20705953--20705978 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20705943 AACTAATAAG
20705953 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
20705979 TATGTCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20706811 original size:447 final size:440
Alignment explanation
Indices: 20706102--20706987 Score: 1569
Period size: 447 Copynumber: 2.0 Consensus size: 440
20706092 TATATACTTT
** *
20706102 GCACTTCATATATATATGTACGCATATGCATATATTTTTCAATTTATATCTATATATATGCATAC
1 GCACTTCATATATATATGTACGCATACACATATATTTTTCAATTTATATCTATATATATACATAC
20706167 TTATGTTTTTTTGTGCTTTATAATTTTTATATATATACATAGATATGCATATTTGTTTTTTTATA
66 TTATGTTTTTTTGTGCTTTATAATTTTTATATATATACATAGATATGCATATTTGTTTTTTTATA
20706232 TATGTATATACATTCATATAAGTTATAATTTAAATATATAGATACACATACATAAATATTTCATC
131 TATGTATATACATTCATATAAGTTATAATTTAAATATATAGATACACATACATAAATATTTCATC
*
20706297 TTTTATAATTCGTATTGTTACCGTTGTTTTATTTGATATTTATTTATTCATTTATTGAAGTGTTC
196 TTTTATAATTCGTATTGTTACCATTGTTTTATTTGATATTTATTTATTCATTTATTGAAGTGTTC
20706362 ATTATATTTATGAAATGCTTTAGATTTTTTATTCATTTATTATTTCATGTATCTTTGATTCGTTT
261 ATTATATTTATGAAATGCTTTAGATTTTTTATTCATTTATTATTTCATGTATCTTTGATTCGTTT
*
20706427 ATTATGTATTTTATTTGTTGCTCATTTTAGTTGTGCTTGTATTATTTTACTTACATTATTATTGT
326 ATTATGTATTTTATTTGTTGCTCATTTTAGTTGTGCTTGTATTATTTTACTTACATTATTATAGT
*
20706492 TGTTATTCCATGATGCTCATTTTTATTTAGATTTC-AAAAAAAGAAATTG
391 TGTTATTCCATGACGCTCATTTTTATTTAGATTTCGAAAAAAAGAAATTG
* *
20706541 GCACTTCATATATATATGTACGCATACATATATATTTTTCAATTTATATCTATATATATACATGC
1 GCACTTCATATATATATGTACGCATACACATATATTTTTCAATTTATATCTATATATATACATAC
20706606 TTATGTTTTTTTGTGCTTTATAATTTATATATATATATACATAGATATGCATATTTG-TTTTTTA
66 TTATGTTTTTTTGTGCTTTATAATTT-T-TATATATATACATAGATATGCATATTTGTTTTTTTA
*
20706670 TATATGTATATACATTCATATAATTTATAATTTATAATTTAAATATATAGATACACATACATAAA
129 TATATGTATATACATTC-----A--TATAAGTTATAATTTAAATATATAGATACACATACATAAA
*
20706735 TATTTCATCTTTTATAATTCGTATTGTTATCATTGTTTTATTTGATATTTATTTATTCATTTATT
187 TATTTCATCTTTTATAATTCGTATTGTTACCATTGTTTTATTTGATATTTATTTATTCATTTATT
*
20706800 GAAGTGTTCATTATTTTTATGAAATGCTTTAGATTTTTTATTCATTTATTATTTCATGTATCTTT
252 GAAGTGTTCATTATATTTATGAAATGCTTTAGATTTTTTATTCATTTATTATTTCATGTATCTTT
20706865 GATTCGTTTATTATGTATTTTATTTGTTGCTCATTTTAGTTGTGCTTGTATTATTTTACTTACAT
317 GATTCGTTTATTATGTATTTTATTTGTTGCTCATTTTAGTTGTGCTTGTATTATTTTACTTACAT
*
20706930 TATTATAGTTGTTATTCCATGACGCTCATTTTTATTTAGATTTCGAAAAAAAGGAATT
382 TATTATAGTTGTTATTCCATGACGCTCATTTTTATTTAGATTTCGAAAAAAAGAAATT
20706988 TTAAAAATAT
Statistics
Matches: 425, Mismatches: 12, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
439 86 0.20
440 25 0.06
441 28 0.07
445 1 0.00
447 273 0.64
448 12 0.03
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (440 bp):
GCACTTCATATATATATGTACGCATACACATATATTTTTCAATTTATATCTATATATATACATAC
TTATGTTTTTTTGTGCTTTATAATTTTTATATATATACATAGATATGCATATTTGTTTTTTTATA
TATGTATATACATTCATATAAGTTATAATTTAAATATATAGATACACATACATAAATATTTCATC
TTTTATAATTCGTATTGTTACCATTGTTTTATTTGATATTTATTTATTCATTTATTGAAGTGTTC
ATTATATTTATGAAATGCTTTAGATTTTTTATTCATTTATTATTTCATGTATCTTTGATTCGTTT
ATTATGTATTTTATTTGTTGCTCATTTTAGTTGTGCTTGTATTATTTTACTTACATTATTATAGT
TGTTATTCCATGACGCTCATTTTTATTTAGATTTCGAAAAAAAGAAATTG
Found at i:20717294 original size:16 final size:16
Alignment explanation
Indices: 20717275--20717310 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
20717265 GATGGAAAAG
20717275 AAAATTGAAAAA-TAAA
1 AAAATT-AAAAATTAAA
20717291 AAAATTAAAAATTAAA
1 AAAATTAAAAATTAAA
20717307 AAAA
1 AAAA
20717311 ATTGTCCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAATTAAAAATTAAA
Found at i:20717497 original size:33 final size:33
Alignment explanation
Indices: 20717443--20717507 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
20717433 TGGGCTGGAG
* *
20717443 ACACATCAATTACGATTATAGTCCTCATCAAAT
1 ACACATCAATTACCATAATAGTCCTCATCAAAT
* * *
20717476 ACACATCAATTTCCATAATAGTCTTTATCAAA
1 ACACATCAATTACCATAATAGTCCTCATCAAA
20717508 GTAGCCTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (33 bp):
ACACATCAATTACCATAATAGTCCTCATCAAAT
Found at i:20718512 original size:107 final size:107
Alignment explanation
Indices: 20718317--20718533 Score: 382
Period size: 107 Copynumber: 2.0 Consensus size: 107
20718307 GAAATAGTAA
20718317 ACTGACATGACATAATATATGTAGTATTATGTTCGCCACATAAGATCTTGAAATTAATAATAACT
1 ACTGACATGACATAATATATGTAGTATTATGTTCGCCACATAAGATCTTGAAATTAATAATAACT
*
20718382 GTTTCATGAGGATCGAAAATTTAAAGTGCATAAAGTAGGGAG
66 GTTTCATGAGGATCGAAAATTTAAAGTGCATAAAGTACGGAG
*
20718424 ACTGACATGACATAATATATGTAGTATTATGTTCGCCACATAAGATCTTGAAATTAATAATTACT
1 ACTGACATGACATAATATATGTAGTATTATGTTCGCCACATAAGATCTTGAAATTAATAATAACT
* *
20718489 GTTTCATGAGGA-CTGAAAGTTTAAAGTGGATAAAGTACGGAG
66 GTTTCATGAGGATC-GAAAATTTAAAGTGCATAAAGTACGGAG
20718531 ACT
1 ACT
20718534 AAAGATGAGC
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
106 1 0.01
107 104 0.99
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (107 bp):
ACTGACATGACATAATATATGTAGTATTATGTTCGCCACATAAGATCTTGAAATTAATAATAACT
GTTTCATGAGGATCGAAAATTTAAAGTGCATAAAGTACGGAG
Found at i:20719864 original size:33 final size:33
Alignment explanation
Indices: 20719818--20719882 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
20719808 TTTAGGCTAC
* *
20719818 TTTGATAAAGACTATTATGGAAATTGATGTGTA
1 TTTGATAAAGACTATAATCGAAATTGATGTGTA
* * *
20719851 TTTGATGAGGACTATAATCGTAATTGATGTGT
1 TTTGATAAAGACTATAATCGAAATTGATGTGT
20719883 CTCTCTCTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (33 bp):
TTTGATAAAGACTATAATCGAAATTGATGTGTA
Found at i:20729388 original size:24 final size:25
Alignment explanation
Indices: 20729352--20729398 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
20729342 TGTAAGTGTT
*
20729352 CTAGTAATGCCT-CATACCCTATTC
1 CTAGTAATACCTCCATACCCTATTC
20729376 CTAGTAATACCTCCATACCCTAT
1 CTAGTAATACCTCCATACCCTAT
20729399 CCGGAGTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.28, C:0.34, G:0.06, T:0.32
Consensus pattern (25 bp):
CTAGTAATACCTCCATACCCTATTC
Found at i:20731162 original size:20 final size:19
Alignment explanation
Indices: 20731112--20731163 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
20731102 ATAAAAAATA
20731112 TTATATT-AATTATATATG
1 TTATATTAAATTATATATG
* * *
20731130 TTAAATAATAATTATATATAT
1 TTATATTA-AATTATATAT-G
20731151 TTATATTAAATTA
1 TTATATTAAATTA
20731164 CTAATTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 5 0.19
20 15 0.58
21 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATATTAAATTATATATG
Found at i:20733795 original size:23 final size:23
Alignment explanation
Indices: 20733751--20733795 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
20733741 GGTATTTGGG
20733751 CCTCCAAAATTTTTAACTTTATTT
1 CCTCCAAAATTTTTAAC-TTATTT
*
20733775 CCTCCAAACTTTTATAA-TTAT
1 CCTCCAAAATTTT-TAACTTAT
20733796 ATCTTGACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 12 0.63
25 3 0.16
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (23 bp):
CCTCCAAAATTTTTAACTTATTT
Found at i:20735955 original size:28 final size:29
Alignment explanation
Indices: 20735905--20735961 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
20735895 TGAAGAGATC
20735905 GCAACTTAGGCTAATATGGTAACTAATCT
1 GCAACTTAGGCTAATATGGTAACTAATCT
20735934 GCAACTTAGGC-AATATGGTAACTAATCT
1 GCAACTTAGGCTAATATGGTAACTAATCT
20735962 TAGAAGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (29 bp):
GCAACTTAGGCTAATATGGTAACTAATCT
Found at i:20738994 original size:13 final size:13
Alignment explanation
Indices: 20738951--20738998 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
20738941 TTTGTTTTGC
20738951 AAAGAAGAAGAAAA
1 AAAGAA-AAGAAAA
* *
20738965 AACA-AAAATAAAC
1 AA-AGAAAAGAAAA
20738978 AAAGAAAAGAAAA
1 AAAGAAAAGAAAA
20738991 AAAGAAAA
1 AAAGAAAA
20738999 TCACCTTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
12 1 0.04
13 22 0.79
14 4 0.14
15 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.02
Consensus pattern (13 bp):
AAAGAAAAGAAAA
Found at i:20764813 original size:32 final size:30
Alignment explanation
Indices: 20764743--20764814 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
20764733 TTAATTTATC
* *
20764743 ATTTCATCATTTTTGAAGGGAATAAACATA
1 ATTTTATCATTTTTGAAGGGAATAAACACA
*
20764773 ATTTTATCATTTTTGAAAGGAGACA-AAATACA
1 ATTTTATCATTTTTG-AAGG-GA-ATAAACACA
20764805 ATTTTATCAT
1 ATTTTATCAT
20764815 ACTTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 14 0.39
31 4 0.11
32 17 0.47
33 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (30 bp):
ATTTTATCATTTTTGAAGGGAATAAACACA
Found at i:20765911 original size:29 final size:29
Alignment explanation
Indices: 20765854--20765933 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
20765844 ACATTAAAAC
* *
20765854 TATATATGAAATTTGATTCAATGTATAATGT
1 TATATATGAATTTTGATT--TTGTATAATGT
* *
20765885 TATATATGAATTTTGATTTTGTGTAATTT
1 TATATATGAATTTTGATTTTGTATAATGT
*
20765914 TATACATGAGATTTTGATTT
1 TATATATGA-ATTTTGATTT
20765934 GATTTGATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.37
30 10 0.23
31 17 0.40
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.51
Consensus pattern (29 bp):
TATATATGAATTTTGATTTTGTATAATGT
Found at i:20766155 original size:2 final size:2
Alignment explanation
Indices: 20766148--20766177 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20766138 TTTAATATGA
20766148 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20766178 TCGTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20768529 original size:16 final size:16
Alignment explanation
Indices: 20768510--20768547 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20768500 TTTGTAATGT
20768510 TTTATATTATT-TAAAA
1 TTTATA-TATTATAAAA
*
20768526 TTTATATATTATAGAA
1 TTTATATATTATAAAA
20768542 TTTATA
1 TTTATA
20768548 ACATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTATATATTATAAAA
Found at i:20772865 original size:3 final size:3
Alignment explanation
Indices: 20772857--20772893 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
20772847 AAATTGTAAA
*
20772857 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
20772894 CCAAATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20774100 original size:4 final size:4
Alignment explanation
Indices: 20774091--20774118 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
20774081 ATTAAGACTT
20774091 AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG
20774119 GGGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:20776304 original size:20 final size:22
Alignment explanation
Indices: 20776276--20776322 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
20776266 TTATTTCCCA
*
20776276 ATTTAAAATTTAATA-AAAA-T
1 ATTTTAAATTTAATATAAAATT
20776296 ATTTTAAATTTAATATAAAATT
1 ATTTTAAATTTAATATAAAATT
20776318 ATTTT
1 ATTTT
20776323 TTACAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.58
21 4 0.17
22 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTAAATTTAATATAAAATT
Found at i:20779441 original size:15 final size:15
Alignment explanation
Indices: 20779421--20779449 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20779411 GTTGTCAAAG
20779421 ATGCTACTAATAATT
1 ATGCTACTAATAATT
20779436 ATGCTACTAATAAT
1 ATGCTACTAATAAT
20779450 CTCCACCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (15 bp):
ATGCTACTAATAATT
Found at i:20788540 original size:29 final size:30
Alignment explanation
Indices: 20788490--20788549 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
20788480 ATTGGGGACT
20788490 TAGTTAATGTTTTATGTACAATAGATAGAG
1 TAGTTAATGTTTTATGTACAATAGATAGAG
20788520 TAGTTAATG-TTTATGTACAATAGATAGAG
1 TAGTTAATGTTTTATGTACAATAGATAGAG
20788549 T
1 T
20788550 TTTTTCAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (30 bp):
TAGTTAATGTTTTATGTACAATAGATAGAG
Found at i:20803250 original size:17 final size:17
Alignment explanation
Indices: 20803198--20803250 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 17
20803188 TATGGAAACA
* *
20803198 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
* *
20803215 CAATCGTAGATATGATATG
1 TAATCTTAGA-A-GATATG
20803234 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
20803251 ATTTACTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 13 0.46
18 1 0.04
19 14 0.50
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:20803250 original size:22 final size:21
Alignment explanation
Indices: 20803222--20803279 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
20803212 ATGCAATCGT
*
20803222 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCTTAG
*
20803243 AAGATATGATTTACTAATCTTAG
1 -AGATATGATTT-GTAATCTTAG
*
20803266 AGATTTGATTTGTA
1 AGATATGATTTGTA
20803280 GATACCTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 2 0.06
22 20 0.65
23 9 0.29
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.41
Consensus pattern (21 bp):
AGATATGATTTGTAATCTTAG
Found at i:20807319 original size:41 final size:41
Alignment explanation
Indices: 20807262--20807798 Score: 1056
Period size: 41 Copynumber: 13.1 Consensus size: 41
20807252 ATTGAAAAGG
*
20807262 AAACCATATATCTCAAAATAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807303 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807344 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807385 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807426 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807467 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807508 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807549 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807590 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807631 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807672 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807713 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
*
20807754 AAACCATATATCTCAAAAGAATTAGACTTCATATAAAGTTT
1 AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
20807795 AAAC
1 AAAC
20807799 TTTAAGTATA
Statistics
Matches: 494, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 494 1.00
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (41 bp):
AAACCATATATCTCAAAAGAATTAGACTTCATAGAAAGTTT
Found at i:20810162 original size:14 final size:15
Alignment explanation
Indices: 20810143--20810173 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
20810133 TTTTCTCAAT
20810143 TTGATTCTA-TTTCA
1 TTGATTCTATTTTCA
20810157 TTGATTCTATTTTCA
1 TTGATTCTATTTTCA
20810172 TT
1 TT
20810174 TTCTTCCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (15 bp):
TTGATTCTATTTTCA
Found at i:20812724 original size:21 final size:21
Alignment explanation
Indices: 20812681--20812724 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
20812671 AGGATCCAAC
*
20812681 ATTTTGAAATCTACGAAGTTTT
1 ATTTTGAAATATACG-AGTTTT
20812703 ATTTTGAAATTATACG-GTTTT
1 ATTTTGAAA-TATACGAGTTTT
20812724 A
1 A
20812725 ACAAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.48
Consensus pattern (21 bp):
ATTTTGAAATATACGAGTTTT
Found at i:20813450 original size:65 final size:64
Alignment explanation
Indices: 20813359--20813497 Score: 251
Period size: 65 Copynumber: 2.2 Consensus size: 64
20813349 AATTGCTAAT
* *
20813359 ATATTATTATATACATACATACGCATACTAAGAAAACAATATTATATAAACATAAAAAAAATGAG
1 ATATCATTATATACATACATACGCATACTAAGAAAACAATAGTATATAAACAT-AAAAAAATGAG
20813424 ATATCATTATATACATACATACGCATACTAAGAAAACAATAGTATATAAACATAAAAAAATGAG
1 ATATCATTATATACATACATACGCATACTAAGAAAACAATAGTATATAAACATAAAAAAATGAG
20813488 ATATCATTAT
1 ATATCATTAT
20813498 GAAAAAAAAT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 21 0.29
65 51 0.71
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (64 bp):
ATATCATTATATACATACATACGCATACTAAGAAAACAATAGTATATAAACATAAAAAAATGAG
Found at i:20814526 original size:16 final size:15
Alignment explanation
Indices: 20814505--20814534 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20814495 TTCAATTTTT
20814505 TGTATTGATCTTTCTG
1 TGTATTGAT-TTTCTG
20814521 TGTATTGATTTTCT
1 TGTATTGATTTTCT
20814535 CTTGATACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.10, G:0.17, T:0.60
Consensus pattern (15 bp):
TGTATTGATTTTCTG
Found at i:20815608 original size:13 final size:13
Alignment explanation
Indices: 20815590--20815621 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
20815580 TGTATAACAA
20815590 AAATTTAGTTAAG
1 AAATTTAGTTAAG
20815603 AAATTTAGTTAAG
1 AAATTTAGTTAAG
20815616 AAATTT
1 AAATTT
20815622 TACTGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (13 bp):
AAATTTAGTTAAG
Found at i:20816732 original size:25 final size:25
Alignment explanation
Indices: 20816703--20816770 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
20816693 CGACTCACCA
20816703 CAGCTCGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCATTATT
* * *
20816728 CAGCTCACATGAGCTCCCCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATT
*
20816753 TAGCTCAG-ATGAGCTTCC
1 CAGCTC-GCATGAGCTTCC
20816771 TGTTTACAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCATTATT
Found at i:20825794 original size:8 final size:8
Alignment explanation
Indices: 20825781--20825806 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
20825771 TTTATGTTAA
20825781 AAATTGTG
1 AAATTGTG
20825789 AAATTGTG
1 AAATTGTG
20825797 AAATTGTG
1 AAATTGTG
20825805 AA
1 AA
20825807 TTATGTGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (8 bp):
AAATTGTG
Found at i:20831955 original size:40 final size:39
Alignment explanation
Indices: 20831872--20831966 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
20831862 NNNNNNNNNN
* *
20831872 TTTTTTAATTTTTTTAATTTTAAACTATTTTTAAAATACT
1 TTTTTTAA-TTTTTTAATTTTAAAATATTTTAAAAATACT
20831912 TTTTTTAATTTTTTAATTTTAAAATATTTTAAAAATACT
1 TTTTTTAATTTTTTAATTTTAAAATATTTTAAAAATACT
20831951 TTTTTTAATTTTTTAA
1 TTTTTTAATTTTTTAA
20831967 AATTTTTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 45 0.85
40 8 0.15
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (39 bp):
TTTTTTAATTTTTTAATTTTAAAATATTTTAAAAATACT
Found at i:20838008 original size:13 final size:13
Alignment explanation
Indices: 20837990--20838014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20837980 AAATGGTAGC
20837990 AAAATAAGAAAAA
1 AAAATAAGAAAAA
20838003 AAAATAAGAAAA
1 AAAATAAGAAAA
20838015 TAACATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAATAAGAAAAA
Found at i:20838663 original size:10 final size:10
Alignment explanation
Indices: 20838650--20838691 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
20838640 TTTTTTAGAA
20838650 TTTTATATAT
1 TTTTATATAT
20838660 TTTTA-ATAT
1 TTTTATATAT
*
20838669 TTTTTTAT-T
1 TTTTATATAT
20838678 TTTTATA-AT
1 TTTTATATAT
20838687 TTTTA
1 TTTTA
20838692 AATAAAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATATAT
Found at i:20838677 original size:17 final size:18
Alignment explanation
Indices: 20838657--20838690 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20838647 GAATTTTATA
20838657 TATTTTTAAT-ATTTTTT
1 TATTTTTAATAATTTTTT
*
20838674 TATTTTTTATAATTTTT
1 TATTTTTAATAATTTTT
20838691 AAATAAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTTAATAATTTTTT
Found at i:20838688 original size:18 final size:18
Alignment explanation
Indices: 20838640--20838691 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
20838630 CTAAAATATT
*
20838640 TTTTTTAGAATTTTATATA
1 TTTTTTATAATTTT-TATA
* *
20838659 TTTTTAAT-ATTTTTTTA
1 TTTTTTATAATTTTTATA
20838676 TTTTTTATAATTTTTA
1 TTTTTTATAATTTTTA
20838692 AATAAAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 10 0.37
18 11 0.41
19 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTTATAATTTTTATA
Found at i:20840614 original size:32 final size:32
Alignment explanation
Indices: 20840573--20840637 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
20840563 CCCCTCAACA
20840573 TCCTATGATAAAGACCCATTGTCAGCATTGTT
1 TCCTATGATAAAGACCCATTGTCAGCATTGTT
*
20840605 TCCTATGATAAAGACCCGTTGTCAGCATTGTT
1 TCCTATGATAAAGACCCATTGTCAGCATTGTT
20840637 T
1 T
20840638 GATAAATCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (32 bp):
TCCTATGATAAAGACCCATTGTCAGCATTGTT
Found at i:20844200 original size:18 final size:19
Alignment explanation
Indices: 20844173--20844210 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20844163 ATATTTAAAC
20844173 TTTATATTTTTT-TTCTAA
1 TTTATATTTTTTGTTCTAA
*
20844191 TTTATTTTTTTTGTTCTAA
1 TTTATATTTTTTGTTCTAA
20844210 T
1 T
20844211 ATGATACCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTATATTTTTTGTTCTAA
Found at i:20855660 original size:7 final size:7
Alignment explanation
Indices: 20855648--20855686 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
20855638 TATTTTGTTT
20855648 TCACATA
1 TCACATA
20855655 TCACATA
1 TCACATA
20855662 TCACATA
1 TCACATA
20855669 TCACATA
1 TCACATA
20855676 TCACATA
1 TCACATA
20855683 TCAC
1 TCAC
20855687 TAACATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (7 bp):
TCACATA
Found at i:20863150 original size:25 final size:26
Alignment explanation
Indices: 20863114--20863168 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
20863104 AAGAGAGTAA
*
20863114 AGAATAAGAAAATATA-AGAGTAAAAG
1 AGAATAAGAAAATA-AGAGAGCAAAAG
20863140 AGAATAA-AAAATAAGAGAGCAAAAG
1 AGAATAAGAAAATAAGAGAGCAAAAG
20863165 AGAA
1 AGAA
20863169 CGGATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.04
25 19 0.70
26 7 0.26
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (26 bp):
AGAATAAGAAAATAAGAGAGCAAAAG
Found at i:20868789 original size:24 final size:24
Alignment explanation
Indices: 20868757--20868827 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
20868747 CAACTCGAAA
*
20868757 GAGCGTCCCGTTAATAGCTCTCT-C
1 GAGCTTCCCGTTAATAGCTCT-TGC
* * *
20868781 GAGCTTCCCGATATATGGTTCTTGC
1 GAGCTTCCCGTTA-ATAGCTCTTGC
*
20868806 GAGCTTCCCATTAATAGCTCTT
1 GAGCTTCCCGTTAATAGCTCTT
20868828 CAGAACATTC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATAGCTCTTGC
Found at i:20868935 original size:26 final size:26
Alignment explanation
Indices: 20868906--20868962 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
20868896 GTTATATGGA
* *
20868906 TCTTCATGAACTTCCTTATTAAAGGT
1 TCTTCATGAACTTCCTGATTAAAGGC
** * *
20868932 TCTTTGTGAGCTTCCTGATTAATGGC
1 TCTTCATGAACTTCCTGATTAAAGGC
20868958 TCTTC
1 TCTTC
20868963 GGAGCTACCC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (26 bp):
TCTTCATGAACTTCCTGATTAAAGGC
Found at i:20874514 original size:21 final size:21
Alignment explanation
Indices: 20874488--20874529 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20874478 GGGACTAAAT
20874488 TGAAAAGTTGTAAAATTTATG
1 TGAAAAGTTGTAAAATTTATG
20874509 TGAAAAGTTGTAAAATTTATG
1 TGAAAAGTTGTAAAATTTATG
20874530 AAAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (21 bp):
TGAAAAGTTGTAAAATTTATG
Found at i:20874535 original size:21 final size:21
Alignment explanation
Indices: 20874490--20874552 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
20874480 GACTAAATTG
**
20874490 AAAAGTTGTAAAATTTATGTG
1 AAAAGTTGTAAAATTTATGAA
20874511 AAAAGTTGTAAAATTTATGAA
1 AAAAGTTGTAAAATTTATGAA
* * *
20874532 AAAA-TTTTGAATTTTATGAA
1 AAAAGTTGTAAAATTTATGAA
20874552 A
1 A
20874553 TACATGGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 14 0.38
21 23 0.62
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (21 bp):
AAAAGTTGTAAAATTTATGAA
Found at i:20874711 original size:10 final size:11
Alignment explanation
Indices: 20874696--20874724 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
20874686 GCCTAAAGTG
20874696 TGAATTGAAT-
1 TGAATTGAATA
20874706 TGAATTGAATA
1 TGAATTGAATA
20874717 TGAATTGA
1 TGAATTGA
20874725 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:20875255 original size:25 final size:25
Alignment explanation
Indices: 20875227--20875344 Score: 91
Period size: 25 Copynumber: 4.8 Consensus size: 25
20875217 GGCTCTTTGT
*
20875227 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* * **
20875252 GAGCTTCCCGA-T-ATGACTCGCTT
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
20875275 GAACTTCCCGA-TATATGGCTATCCG
1 GAGCTTCCCGATTA-ATGGCTCTCCG
** *
20875300 GAGCTTCCTAATTAATGGCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
20875325 GAGCTACCCG-TTATTGGCTC
1 GAGCTTCCCGATTAATGGCTC
20875345 GCATGAGCTT
Statistics
Matches: 70, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
23 18 0.26
24 10 0.14
25 40 0.57
26 2 0.03
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCCG
Found at i:20875315 original size:73 final size:73
Alignment explanation
Indices: 20875227--20875367 Score: 194
Period size: 73 Copynumber: 1.9 Consensus size: 73
20875217 GGCTCTTTGT
* * *
20875227 GAGCTTCCTGATTAATGGCTCTCCGGAGCTTCCCGATA-TGACTCGCTTGAACTTCCCGATATAT
1 GAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATATTGACTCGCATGAACTTCCCGA-ATAT
20875291 GGCTATCCG
65 GGCTATCCG
* * * * *
20875300 GAGCTTCCTAATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTCCTGAATATG
1 GAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATATTGACTCGCATGAACTTCCCGAATATG
20875365 GCT
66 GCT
20875368 CTTATGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
73 42 0.71
74 17 0.29
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (73 bp):
GAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATATTGACTCGCATGAACTTCCCGAATATG
GCTATCCG
Found at i:20875377 original size:73 final size:73
Alignment explanation
Indices: 20875217--20875380 Score: 186
Period size: 73 Copynumber: 2.2 Consensus size: 73
20875207 TCCGGTTAAA
* * * *
20875217 GGCTCTTTGTGAGCTTCCTGATTAATGGCTCTCCGGAGCTTCCCGATATGACTCGCTTGAACTTC
1 GGCTC-TTATGAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATATGACTCGCATGAACTTC
20875282 CCGATATAT
65 CCGATATAT
* *** * * * *
20875291 GGCTATCCGGAGCTTCCTAATTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCATGAGCTTC
1 GGCTCTTATGAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATA-TGACTCGCATGAACTTC
*
20875356 CTGA-ATAT
65 CCGATATAT
20875364 GGCTCTTATGAGCTTCC
1 GGCTCTTATGAGCTTCC
20875381 CATTATACAA
Statistics
Matches: 73, Mismatches: 16, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
73 52 0.71
74 21 0.29
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.33
Consensus pattern (73 bp):
GGCTCTTATGAGCTTCCTAATTAATGGCTCTCCGGAGCTACCCGATATGACTCGCATGAACTTCC
CGATATAT
Found at i:20875856 original size:15 final size:15
Alignment explanation
Indices: 20875836--20875865 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20875826 CATGTTATAC
20875836 GAACTTACTAAACAT
1 GAACTTACTAAACAT
20875851 GAACTTACTAAACAT
1 GAACTTACTAAACAT
20875866 TAAATGCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
GAACTTACTAAACAT
Found at i:20881427 original size:16 final size:16
Alignment explanation
Indices: 20881402--20881432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20881392 ATCATCCCTT
*
20881402 TCTCTTTCTCTTTCTC
1 TCTCTCTCTCTTTCTC
20881418 TCTCTCTCTCTTTCT
1 TCTCTCTCTCTTTCT
20881433 ACTTTTCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (16 bp):
TCTCTCTCTCTTTCTC
Found at i:20883344 original size:6 final size:6
Alignment explanation
Indices: 20883336--20883369 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20883326 TGGCCATGGC
* *
20883336 CTGCAC CTGCAA CTGCAA CTGCAA CTGCAG CTGC
1 CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CTGC
20883370 TTAAATTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.24, C:0.38, G:0.21, T:0.18
Consensus pattern (6 bp):
CTGCAA
Found at i:20889865 original size:6 final size:6
Alignment explanation
Indices: 20889856--20889904 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
20889846 CTTCCTACAC
20889856 TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA
1 TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA TCTATA
20889904 T
1 T
20889905 ACGAGTGATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTATA
Found at i:20892474 original size:12 final size:12
Alignment explanation
Indices: 20892459--20892484 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20892449 TCTTATTATT
20892459 TAATTTATGCAA
1 TAATTTATGCAA
20892471 TAATTTATGCAA
1 TAATTTATGCAA
20892483 TA
1 TA
20892485 TTTTTTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
TAATTTATGCAA
Found at i:20892791 original size:26 final size:26
Alignment explanation
Indices: 20892754--20892833 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
20892744 TACTGATTAT
20892754 TTTACTTA-GATATCAAAGTTTTCGA
1 TTTACTTACGATATCAAAGTTTTCGA
20892779 TTTACTTACGATATCAAAGTTTTCGA
1 TTTACTTACGATATCAAAGTTTTCGA
20892805 TTTACTTACGATATCAAAGTTTTCGA
1 TTTACTTACGATATCAAAGTTTTCGA
20892831 TTT
1 TTT
20892834 CAAGCAAGGC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 8 0.15
26 46 0.85
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (26 bp):
TTTACTTACGATATCAAAGTTTTCGA
Found at i:20904246 original size:32 final size:32
Alignment explanation
Indices: 20904210--20904272 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
20904200 TCATAAACTT
20904210 ATAAATTGA-TTATTTGAATTTAATAACTCATG
1 ATAAATTGATTTATTT-AATTTAATAACTCATG
* *
20904242 ATAAATTGATTTATTTATTTTGATAACTCAT
1 ATAAATTGATTTATTTAATTTAATAACTCAT
20904273 AAAAATTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (32 bp):
ATAAATTGATTTATTTAATTTAATAACTCATG
Found at i:20904275 original size:29 final size:29
Alignment explanation
Indices: 20904205--20904275 Score: 72
Period size: 32 Copynumber: 2.3 Consensus size: 29
20904195 GAGCATCATA
*
20904205 AACTTATAAATTGATTATTTGAATTTAAT
1 AACTCATAAATTGATTATTTGAATTTAAT
* *
20904234 AACTCATGATAAATTGATTTATTT-ATTTTGAT
1 AACTC---ATAAATTGA-TTATTTGAATTTAAT
20904266 AACTCATAAA
1 AACTCATAAA
20904276 AATTAATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
29 9 0.26
32 20 0.57
33 6 0.17
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (29 bp):
AACTCATAAATTGATTATTTGAATTTAAT
Found at i:20904441 original size:145 final size:145
Alignment explanation
Indices: 20904176--20904442 Score: 354
Period size: 145 Copynumber: 1.8 Consensus size: 145
20904166 TTCTACTTAA
* * *
20904176 ATATTCTACTATGAATTTCGAGCATCATAAACTTATAAATTGATTATTTGAATTTAATAACTCAT
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTACTTGAATTTAATAACACAT
* * * * * * *
20904241 GATAAATTGATTTATTTATTTTGATAACTCATAAAAATTAATTGAGCTTGTTAGATTTATGATCA
66 GATAAATTAATTAATTTAATTTGATAACCCATAAAAATTAATTAAACTTGCTAGATTTATGATCA
20904306 ATCACGTGTAAGAAT
131 ATCACGTGTAAGAAT
* * * * *
20904321 ATATTTTACTATGAATTTGGAACGTCATAAACTTGTAAATTGATTACTTGAGTTTAATAACACAT
1 ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTACTTGAATTTAATAACACAT
* * ***
20904386 TATTAATTAATTAATTTAATTTGATAACCCATATTGATTAATTAAACTTGCTAGATT
66 GATAAATTAATTAATTTAATTTGATAACCCATAAAAATTAATTAAACTTGCTAGATT
20904443 AATAATCCTC
Statistics
Matches: 102, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
145 102 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (145 bp):
ATATTCTACTATGAATTTCGAACATCATAAACTTATAAATTGATTACTTGAATTTAATAACACAT
GATAAATTAATTAATTTAATTTGATAACCCATAAAAATTAATTAAACTTGCTAGATTTATGATCA
ATCACGTGTAAGAAT
Found at i:20906483 original size:114 final size:114
Alignment explanation
Indices: 20906320--20906740 Score: 384
Period size: 114 Copynumber: 3.7 Consensus size: 114
20906310 GTTTACCTTC
* * * * *
20906320 AAGCGCCGCAAAAT-CCCTAAACCAAAACG-AAGTGTTTTAGTGTTGATGTATACTAGAATTAGT
1 AAGCGCTGCAAAATATCTTAAA-CAAAACGCAA-TGTTTTGGTCTTGATGTATACTAGAATTAGT
* * *
20906383 GGCGATTATGGGAAAACTCCGCTAAAGCAAGTATTAGCGGCGATCCGTGAA
64 GGCGATTATGGAAAAACACCGCTAAAGCAAGTATTAGCGGCGATTCGTGAA
* * * * * * *
20906434 AAGCGCTACAAAAAATCTTAAAGAAAATGCATTGTTTTGGTCTTGATGTATATTAGAATTACTGG
1 AAGCGCTGCAAAATATCTTAAACAAAACGCAATGTTTTGGTCTTGATGTATACTAGAATTAGTGG
* * * * * *
20906499 CGCTTA-AGAAAACACACCGCTAAAGAAAGTATTAACGGCGCTTCTTGAA
66 CGATTATGGAAAA-ACACCGCTAAAGCAAGTATTAGCGGCGATTCGTGAA
* * * * *
20906548 AAACGCTGCAAAATATCTTAACCAAAACGCAAAG-TTTGGTCTTGA-GTTATATTATAATTAGTG
1 AAGCGCTGCAAAATATCTTAAACAAAACGCAATGTTTTGGTCTTGATG-TATACTAGAATTAGTG
* * * * * * **
20906611 GCGGTTATGGAAAAACGCCGCCAAAGCAAAGTATTAGTGGCGTTTTGTGGC
65 GCGATTATGGAAAAACACCGCTAAAGC-AAGTATTAGCGGCGATTCGTGAA
* ** *
20906662 AAGCGCCGCAAAATATCTTAAAACAAAACGCAGCGTTTTGGTCTTAATGTATACTAGAATTAGTG
1 AAGCGCTGCAAAATATCTT-AAACAAAACGCAATGTTTTGGTCTTGATGTATACTAGAATTAGTG
* * *
20906727 ACGCTTACGGAAAA
65 GCGATTATGGAAAA
20906741 CGCCGCCATG
Statistics
Matches: 244, Mismatches: 54, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
112 1 0.00
113 45 0.18
114 144 0.59
115 18 0.07
116 35 0.14
117 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (114 bp):
AAGCGCTGCAAAATATCTTAAACAAAACGCAATGTTTTGGTCTTGATGTATACTAGAATTAGTGG
CGATTATGGAAAAACACCGCTAAAGCAAGTATTAGCGGCGATTCGTGAA
Found at i:20907059 original size:75 final size:76
Alignment explanation
Indices: 20906955--20907141 Score: 234
Period size: 76 Copynumber: 2.5 Consensus size: 76
20906945 ACAAGCGCTG
* * *
20906955 CAAAATATCTTAACCAAAACGTAGAGTTTT-GTTTTGAGGTATATTAAAATTAGTGGCGCTTAAA
1 CAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTAAA
20907019 GGAAAACACCC
66 GGAAAACACCC
* * * **
20907030 CAAAATATCTTAACCAAAACGCA-ATGTTTTGGTCTTGATGTATACTAGAGTTAGTGGCGCTTGC
1 CAAAATATCTTAACCAAAACGCAGA-GTTTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTAA
* * * *
20907094 GGGAAAGCGCCG
65 AGGAAAACACCC
*
20907106 CAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTT
1 CAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTT
20907142 AACCATGCAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
74 1 0.01
75 27 0.28
76 68 0.71
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (76 bp):
CAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATACTAAAATTAGTGGCGCTTAAA
GGAAAACACCC
Found at i:20907296 original size:20 final size:20
Alignment explanation
Indices: 20907244--20907308 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
20907234 TATTTTTGGA
20907244 TTACAGTTTAGGGTTTAGAGT
1 TTACAGTTTA-GGTTTAGAGT
* * *
20907265 TTACAATATAGGTTTAGTGT
1 TTACAGTTTAGGTTTAGAGT
*
20907285 TTTCAGTTTAGGGTTTGAGAGT
1 TTACAGTTTA-GGTTT-AGAGT
20907307 TT
1 TT
20907309 GGTGATTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 16 0.46
21 13 0.37
22 6 0.17
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (20 bp):
TTACAGTTTAGGTTTAGAGT
Found at i:20909944 original size:113 final size:114
Alignment explanation
Indices: 20909791--20910336 Score: 528
Period size: 116 Copynumber: 4.8 Consensus size: 114
20909781 AAATCTCAAG
* * * * * *
20909791 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTGGAATTAGTGGCGCTTACGAACAAACGCCGG
1 ACCAAAACGCAGAGTT-TGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGC
* * *
20909856 TAATGCATAGTATTAGCGGCGCTTAGCAG-AAGCGCCGCAAAAGATGTTA
65 TAATGGATAGTATTAGCGGCGCTTAGCGGTAAGCGCCGCAAAAGATCTTA
* *
20909905 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGC
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAA-AAAACGCCGC
* * * * * *
20909970 TAATGTATAGTATTAGTGGCGCTGAGCGTTAAACGCCGCAAAACATCTTA
65 TAATGGATAGTATTAGCGGCGCTTAGCGGTAAGCGCCGCAAAAGATCTTA
* * * * * * *
20910020 ACCAAAACGCAGCGTGTTGGTCTTGATGTATACTATAATTAGTGGCGTTTAAG-GAAAACGCCAC
1 ACCAAAACGCAGAGT-TTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGC
* * * * * *
20910084 TAAAGGATAGTAATAGCAGCG-TTTGTGGAAAGCGCCGC-AAAGTATCTTA
65 TAATGGATAGTATTAGCGGCGCTTAGCGGTAAGCGCCGCAAAAG-ATCTTA
* *
20910133 ACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTAAAAAACGCCGCT
1 ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCT
* * * *** *
20910198 AATGGTTACTATTTGCGGCGCTTTTTGGTAAGCGCCGCAAAAAGATATTA
66 AATGGATAGTATTAGCGGCGCTTAGCGGTAAGCGCCGC-AAAAGATCTTA
* * * * * ** **
20910248 ACGAAAACACA-ACGTTTAGTTCTTGATGTATACTGGAATTAGTGGCGCACATGGGAAAACGCCG
1 ACCAAAACGCAGA-GTTT-GGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCG
* *
20910312 CTGAA-GCATAGTATTAGCGTCGCTT
64 CT-AATGGATAGTATTAGCGGCGCTT
20910337 TTCCCAAAAC
Statistics
Matches: 351, Mismatches: 70, Indels: 20
0.80 0.16 0.05
Matches are distributed among these distances:
112 34 0.10
113 89 0.25
114 87 0.25
115 49 0.14
116 90 0.26
117 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (114 bp):
ACCAAAACGCAGAGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCT
AATGGATAGTATTAGCGGCGCTTAGCGGTAAGCGCCGCAAAAGATCTTA
Found at i:20910174 original size:228 final size:228
Alignment explanation
Indices: 20909791--20910295 Score: 581
Period size: 228 Copynumber: 2.2 Consensus size: 228
20909781 AAATCTCAAG
* * * * **
20909791 ACCAACACGCAGCGTTCTGGTCTTGATGTATATTGGAATTAGTGGCGCTTACGAACAAACGCCGG
1 ACCAAAACGCAGCGTTCTGGTCTTGATGTATACTAGAATTAGTGGCGCTTAAGAACAAACGCCAC
* * * *
20909856 TAATGCATAGTATTAGCGGCGCTTAGCAGAAGCGCCGCAAAAGATGTTAACCAAAACGCAGAGTT
66 TAAAGCATAGTAATAGCAGCGCTTAGCAGAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTT
*
20909921 TGGTCTTGATGTATATTACAATTAGTGGCGCTTATAAAGAAAACGCCGCTAATGTATAGTATTAG
131 TGGTCTTGAGGTATATTACAATTAGTGGCGCTTATAAA-AAAACGCCGCTAATGTATAGTATTAG
20909986 TGGCGCTGAGCGTTAAACGCCGCAAAACATCTTA
195 TGGCGCTGAGCGTTAAACGCCGCAAAACATCTTA
* * *
20910020 ACCAAAACGCAGCGTGT-TGGTCTTGATGTATACTATAATTAGTGGCGTTTAAGGA-AAACGCCA
1 ACCAAAACGCAGCGT-TCTGGTCTTGATGTATACTAGAATTAGTGGCGCTTAAGAACAAACGCCA
* * **
20910083 CTAAAGGATAGTAATAGCAGCG-TTTGTGGAAAGCGCCGC-AAAGTATCTTAACCAAAACGCAGA
65 CTAAAGCATAGTAATAGCAGCGCTTAGCAG-AAGCGCCGCAAAAG-ATCTTAACCAAAACGCAGA
* * *
20910146 GTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTAAAAAACGCCGCTAATGGT-TACTAT
128 GTTTGGTCTTGAGGTATATTACAATTAGTGGCGCTTATAAAAAAACGCCGCTAAT-GTATAGTAT
* * **** * * * *
20910210 TTGCGGCGCTTTTTGGTAAGCGCCGCAAAAAGATATTA
192 TAGTGGCGCTGAGCGTTAAACGCCGC-AAAACATCTTA
* * * * *
20910248 ACGAAAACACAACGTT-TAGTTCTTGATGTATACTGGAATTAGTGGCGC
1 ACCAAAACGCAGCGTTCT-GGTCTTGATGTATACTAGAATTAGTGGCGC
20910296 ACATGGGAAA
Statistics
Matches: 232, Mismatches: 38, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
227 47 0.20
228 138 0.59
229 46 0.20
230 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (228 bp):
ACCAAAACGCAGCGTTCTGGTCTTGATGTATACTAGAATTAGTGGCGCTTAAGAACAAACGCCAC
TAAAGCATAGTAATAGCAGCGCTTAGCAGAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTT
TGGTCTTGAGGTATATTACAATTAGTGGCGCTTATAAAAAAACGCCGCTAATGTATAGTATTAGT
GGCGCTGAGCGTTAAACGCCGCAAAACATCTTA
Found at i:20910947 original size:81 final size:81
Alignment explanation
Indices: 20910849--20910998 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
20910839 GGATTCGGTG
* * * *
20910849 TCGGGTTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTT-T-TATAAAATATGGTTTAA
1 TCGGGTTAGGATTTAGGGTTTAGATTAATTAATAT-TTTTAATTTATGTATAAAATAAGGTTT-A
20910912 GGGTTAGGGGTTAGGGAT
64 GGGTTAGGGGTTAGGGAT
* *
20910930 TCGGGTTAGGATTTAGGGTTTTGATTAATTAATATTTTTAATTTATGTATTAAATAAGGTTTAGG
1 TCGGGTTAGGATTTAGGGTTTAGATTAATTAATATTTTTAATTTATGTATAAAATAAGGTTTAGG
20910995 GTTA
66 GTTA
20910999 ATTAATAGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 9 0.15
81 39 0.64
82 13 0.21
ACGTcount: A:0.27, C:0.02, G:0.26, T:0.45
Consensus pattern (81 bp):
TCGGGTTAGGATTTAGGGTTTAGATTAATTAATATTTTTAATTTATGTATAAAATAAGGTTTAGG
GTTAGGGGTTAGGGAT
Found at i:20913635 original size:7 final size:7
Alignment explanation
Indices: 20913623--20913647 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20913613 GACTTCTAGT
20913623 GTTTGGG
1 GTTTGGG
20913630 GTTTGGG
1 GTTTGGG
20913637 GTTTGGG
1 GTTTGGG
20913644 GTTT
1 GTTT
20913648 AAGGTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (7 bp):
GTTTGGG
Found at i:20914136 original size:147 final size:147
Alignment explanation
Indices: 20913955--20914278 Score: 343
Period size: 147 Copynumber: 2.2 Consensus size: 147
20913945 TACGTTGCTA
* * ** * *
20913955 TTAGTGGCGCTTT-TTGTGAAACGCCGCAAAATTGTAATTATGTTTATTGAAATGTTGTCGTTTT
1 TTAGTGGCGCTTTATT-TAAAACGCCGCAAAATTGTAATAACATTTATTGAAACGTTGCCG-TTT
** *
20914019 TGTCTACGGTATTAGTGGCGTTTTTTG-G-AAACGCCACAACATTG-GGTAAACTGTTGGGGAAA
64 TGTAAACGGTATTAGTGGCG-TTTTTGAGAAAACGCCACAACATTGAGGT-AACTGTTGAGGAAA
* *
20914081 CGGCTTCGTTTTGACTTATAG
127 CGACTGCGTTTTGACTTATAG
* ** *
20914102 TTAGTGGCGCTTTACTTAAAACGCCGCAAAATTGTTCTAACATTTGTTGAAACGTTGCCGTTTTG
1 TTAGTGGCGCTTTATTTAAAACGCCGCAAAATTGTAATAACATTTATTGAAACGTTGCCGTTTTG
* * **** * * *
20914167 TAAATGTTATTAGTGGCGTTTTTGAGAAAACGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGAC
66 TAAACGGTATTAGTGGCGTTTTTGAGAAAACGCCACAACATTGAGGTAACTGTTGAGGAAACGAC
*
20914232 TGCGTTTTGACTTATAT
131 TGCGTTTTGACTTATAG
20914249 TTAGTGGCGC-TTAGTTTAAAACGCCGCAAA
1 TTAGTGGCGCTTTA-TTTAAAACGCCGCAAA
20914279 TTTTGACTTA
Statistics
Matches: 146, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
145 6 0.04
146 23 0.16
147 113 0.77
148 4 0.03
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (147 bp):
TTAGTGGCGCTTTATTTAAAACGCCGCAAAATTGTAATAACATTTATTGAAACGTTGCCGTTTTG
TAAACGGTATTAGTGGCGTTTTTGAGAAAACGCCACAACATTGAGGTAACTGTTGAGGAAACGAC
TGCGTTTTGACTTATAG
Found at i:20914299 original size:43 final size:43
Alignment explanation
Indices: 20914236--20914321 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
20914226 AGCGACTGCG
*
20914236 TTTTGACTTATATTTAGTGGCGCTTAGTTTAAAACGCCGCAAA
1 TTTTGACTTATATTTAGTGGCGCTTAGCTTAAAACGCCGCAAA
*
20914279 TTTTGACTTATAGTTT-GTGGCGCTTTGCTTAAAACGCCGCAAA
1 TTTTGACTTATA-TTTAGTGGCGCTTAGCTTAAAACGCCGCAAA
20914322 AATGTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (43 bp):
TTTTGACTTATATTTAGTGGCGCTTAGCTTAAAACGCCGCAAA
Done.